Running questions

  • Below are some questions to revisit during further analysis
    • Should we look at data from last decade only rather than last 30 years?
    • How to structure this document
      • climate variable (MAT, MAP)
        • compare across symptoms (filtered?)
        • compare across ‘number of unhealthy trees’
        • compare across size class?
        • compare across site type?

Data Prep

Import data

Data downloaded manually from iNat.

Wrangle Data

Prepare dataset for extracting environmental (climate, topo, soils) data

Data Visualization

Climate

30 Normals

Import dataset with 30yr normals data

Merge data

Clean data

Add consistency to factors Symptoms

Unhealthy trees

Tree size

Filter data

Only include symptoms of interest

MAT
Symptoms

Site Severity
Size Class
MAP

AHM

SHM

Filtered SHM <200

MSP

CMD

Eref

Decade 2011-2020

Import dataset with Decade 2011-2020

Merge data

Clean data

Add consistency to factors Symptoms

Unhealthy trees

Tree size

Filter data

Only include symptoms of interest

## [1] "Healthy"                                           
## [2] "New Dead Top (red or brown needles still attached)"
## [3] "Old Dead Top (needles already gone)"               
## [4] "Thinning Canopy"                                   
## [5] "Tree is dead"
MAT
Symptoms

Site Severity
Size Class
MAP

AHM

SHM

Filtered SHM <200

MSP

CMD

Eref

TOPO Data

Import TOPO Data

Merge data

Clean data

Add consistency to factors Symptoms

Unhealthy trees

Tree size

Filter data

Only include symptoms of interest

## [1] "Healthy"                                           
## [2] "New Dead Top (red or brown needles still attached)"
## [3] "Old Dead Top (needles already gone)"               
## [4] "Thinning Canopy"                                   
## [5] "Tree is dead"

Aspect

## Warning: Removed 36 rows containing non-finite values (stat_boxplot).

Slope

## Warning: Removed 36 rows containing non-finite values (stat_boxplot).

Elevation

## Warning: Removed 36 rows containing non-finite values (stat_boxplot).

Topo & Climate

Slope
CMD
## Warning: Removed 36 rows containing missing values (geom_point).

## `geom_smooth()` using method = 'loess' and formula 'y ~ x'
## Warning: Removed 36 rows containing non-finite values (stat_smooth).

## `geom_smooth()` using method = 'loess' and formula 'y ~ x'
## Warning: Removed 36 rows containing non-finite values (stat_smooth).

Elevation
## `geom_smooth()` using method = 'loess' and formula 'y ~ x'
## Warning: Removed 36 rows containing non-finite values (stat_smooth).

Soils Data

Import Soils Data

Merge data

Add consistency to factors

Symptoms

Unhealthy trees

Tree size

Filter data

Only include symptoms of interest

## [1] "Healthy"                                           
## [2] "New Dead Top (red or brown needles still attached)"
## [3] "Old Dead Top (needles already gone)"               
## [4] "Thinning Canopy"                                   
## [5] "Tree is dead"

Observations are filtered to only include those with Soils Data

Only include data with soils data (Oregon and Washington)

Bedrock Depth

## Warning: Removed 621 rows containing non-finite values (stat_boxplot).

drclasscd

drclasswettest

hydgrpdcd

slopegradwta

## Warning: Removed 33 rows containing non-finite values (stat_boxplot).

niccdcdpct

## Warning: Removed 3 rows containing non-finite values (stat_boxplot).

Binary Data

## [1] "Healthy"   "Unhealthy"

Climate

MAT

Site Severity
Size Class
MAP

AHM

SHM

Filtered SHM <200

MSP

CMD

Eref

Topo

## `geom_smooth()` using method = 'loess' and formula 'y ~ x'
## Warning: Removed 275 rows containing non-finite values (stat_smooth).

## Warning: Removed 275 rows containing non-finite values (stat_boxplot).

Soils

## [1] "Healthy"   "Unhealthy"
Bedrock Depth
## Warning: Removed 621 rows containing non-finite values (stat_boxplot).

drclasscd

drclasswettest

hydgrpdcd

slopegradwta
## Warning: Removed 33 rows containing non-finite values (stat_boxplot).

niccdcdpct
## Warning: Removed 3 rows containing non-finite values (stat_boxplot).

Severe sites

Climate

MSP

CMD

Soils

Bedrock Depth
## Warning: Removed 28 rows containing non-finite values (stat_boxplot).

drclasscd

drclasswettest

hydgrpdcd

slopegradwta

niccdcdpct